4.1.1: fix SBML, standardized repo

• Curation:
  • most chemical formulae are without brackets.
  • remove reactions that were not connected to remaining network and had no gene annotation
  • partial correct KEGG and subSystem annotations
  • correct metabolite charge and annotations
• Refactoring:
  • fbc_label is now specified for each gene.
  • x_BIOMASS is set as default objective function.
  • move towards a standardized format of versioning, inspired by yeast-GEM, including not tracking binaries in devel
• New features:
  • scripts newCommit and newRelease for updating repository.
  • add .gitignore.